TrackViewer offers multi-omics analysis with web based tracks and lollipops. Visualize mapped reads along with annotation as track layers for NGS datasets such as ChIP-seq, RNA-seq, miRNA-seq, DNA-seq, SNPs and methylation data.

The file processes to produce (real) rulers; the author suggests printing them on transparent plastic and trimming for use as a real ruler. The rule widths are 0.05mm, which can be challenging for (old) laser printers.

An interactive document on the topic of one-way and two-way analysis of variance using rmarkdown and shiny packages. Runtime examples are provided in the package function as well as at <https://kartikeyab.shinyapps.io/ANOVAShiny/>.

Generates interactive bipartite graphs using the D3 library. Designed for use with the bipartite analysis package. Includes open source viz-js library Adapted from examples at <https://bl.ocks.org/NPashaP> (released under GPL-3).

This package contains a split population survival estimator that models the misclassification probability of failure versus right-censored events. The split population survival estimator is described in Bagozzi et al. (2019) <doi:10.1017/pan.2019.6>.

Defines the classes and functions used to simulate and to analyze data sets describing copy number variants and, optionally, sequencing mutations in order to detect clonal subsets. See Zucker et al. (2019) <doi:10.1093/bioinformatics/btz057>.

Build dendrograms with sample groups highlighted by different colors. Visualize results of hierarchical clustering analyses as dendrograms whose leaves and labels are colored according to sample grouping. Assess whether data point grouping aligns to naturally occurring clusters.

This package provides a daily summary of the Coronavirus (COVID-19) cases by state/province. Data source: Johns Hopkins University Center for Systems Science and Engineering (JHU CCSE) Coronavirus <https://systems.jhu.edu/research/public-health/ncov/>.

This package provides a statistically and computationally efficient debiasing method for conducting valid inference on the high-dimensional linear regression function with missing outcomes. The reference paper is Zhang, Giessing, and Chen (2023) <arXiv:2309.06429>.

Offers functionality which provides methods for data analyses and cleaning that can be flexibly applied across multiple variables and in groups. These include cleaning accidental text, contingent calculations, counting missing data, and building summarizations of the data.

Fit, plot and compare several (extreme value) distribution functions. Compute (truncated) distribution quantile estimates and plot return periods on a linear scale. On the fitting method, see Asquith (2011): Distributional Analysis with L-moment Statistics [...] ISBN 1463508417.

Interact with the application programming interface for the web annotation service Hypothes.is (See <http://hypothes.is> for more information.) Allows users to download data about public annotations, and create, retrieve, update, and delete their own annotations.

This package provides functions to perform robust nonparametric survival analysis with right censored data using a prior near-ignorant Dirichlet Process. Mangili, F., Benavoli, A., de Campos, C.P., Zaffalon, M. (2015) <doi:10.1002/bimj.201500062>.

Multi Calculator of different scores to measure adherence to Mediterranean Diet, to compute them in nutriepidemiological data. Additionally, a sample dataset of this kind of data is provided, and some other minor tools useful in epidemiological studies.

Deploy file changes across multiple GitHub repositories using the GitHub Web API <https://docs.github.com/en/rest>. Allows synchronizing common files, Continuous Integration ('CI') workflows, or configurations across many repositories with a single command.

Simultaneously evaluate multiple ordinal outcome measures. Applied data analysts in particular are faced with uncertainty in choosing appropriate statistical tests for ordinal data. The included shiny application allows users to simulate outcomes given different ordinal data distributions.

Use health data in the Observational Medical Outcomes Partnership Common Data Model format in Spark'. Functionality includes creating all required tables and fields and creation of a single reference to the data. Native Spark functionality is supported.

This package provides functions for easily reading and processing binary data files created by Pamguard (<https://www.pamguard.org/>). All functions for directly reading the binary data files are based on MATLAB code written by Michael Oswald.

This package provides three Quarto website templates as an R project, which are commonly used by academics. Templates for personal websites and course/workshop websites are included, as well as a template with minimal content for customization.

This package provides a simple function that anonymises a list of variables in a consistent way: anonymised factors are not recycled and the same original levels receive the same anonymised factor even if located in different datasets.

Estimate the regression coefficients and the baseline hazard of proportional hazard Cox models with left, right or interval censored survival data using maximum penalised likelihood. A non-parametric smooth estimate of the baseline hazard function is provided.

Sleep cycles are largely detected according to the originally proposed criteria by Feinberg & Floyd (1979) <doi:10.1111/j.1469-8986.1979.tb02991.x> as described in Blume & Cajochen (2021) <doi:10.1016/j.mex.2021.101318>.

This package provides functions for tabulating and summarizing continuous, ordinal, and categorical variables in data frames. The package was designed to streamline exploratory data analysis and simplify the creation of summary tables for reports and other purposes.

Information on all of the TriMet stops in the Portland Metro Area. It includes information such as the longitude, latitude, cross street, and direction of the stop. TriMet has catalogued these stops, 6880 in total.